PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

BGIOSGA023011-PA

Common Name

OsI_23175

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

C3H

Protein Properties

Length: 628aa MW: 71027.1 Da PI: 6.7092

Description

C3H family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA023011-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-CCCH	18.9	2.7e-06	61	86	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++ + C+++ ++G Ck+G C ++H+ BGIOSGA023011-PA 61 PGVPDCSYYVEFGSCKFGMGCLYNHP 86 5789*********************8 PP
2	zf-CCCH	24.2	5.7e-08	106	128	5	27
--SGGGGTS--TTTTT-SS-SSS CS zf-CCCH 5 lCrffartGtCkyGdrCkFaHgp 27 C +++r+G CkyG +C+F+H+p BGIOSGA023011-PA 106 DCLHYLRFGRCKYGMNCRFNHPP 128 699******************96 PP
3	zf-CCCH	35.1	2.3e-11	168	193	1	26
--S---SGGGGTS--TTTTT-SS-SS CS zf-CCCH 1 yktelCrffartGtCkyGdrCkFaHg 26 ++t lC++++ G+Ck+G++CkF+H+ BGIOSGA023011-PA 168 PGTGLCSYYMNRGICKFGSNCKFHHP 193 5799*********************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00356	0.092	60	87	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	12.145	60	88	IPR000571	Zinc finger, CCCH-type
Pfam	PF14608	0.59	65	86	No hit	No description
PROSITE profile	PS50103	13.882	101	129	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	0.0079	101	128	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.96E-5	103	131	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	3.9E-5	106	128	IPR000571	Zinc finger, CCCH-type
PROSITE profile	PS50103	15.507	167	195	IPR000571	Zinc finger, CCCH-type
SMART	SM00356	2.8E-5	167	194	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF90229	1.57E-6	168	194	IPR000571	Zinc finger, CCCH-type
Pfam	PF00642	7.5E-9	169	193	IPR000571	Zinc finger, CCCH-type
Gene3D	G3DSA:4.10.1000.10	3.6E-5	170	192	IPR000571	Zinc finger, CCCH-type
SuperFamily	SSF48371	3.74E-33	383	566	IPR016024	Armadillo-type fold
Gene3D	G3DSA:1.25.40.180	1.6E-32	386	545	IPR016021	MIF4G-like domain
SMART	SM00543	1.1E-11	391	619	IPR003890	MIF4G-like, type 3
Pfam	PF02854	8.0E-25	391	546	IPR003890	MIF4G-like, type 3

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0003723	Molecular Function	RNA binding
GO:0005515	Molecular Function	protein binding
GO:0046872	Molecular Function	metal ion binding

Sequence ? help Back to Top
Protein Sequence Length: 628 aa Download sequence Send to blast
MATTTSSSAC DPAAISPTPS QQHASSTVKT LDDRRPAGTS SSAGETEPKA AVEPQEYPRR 60 PGVPDCSYYV EFGSCKFGMG CLYNHPAKHA GGCDKLEHPQ RPGEHDCLHY LRFGRCKYGM 120 NCRFNHPPDR LPQQQVYFPW KACHCHHSEG KSEAEHVKLN FLGLPLRPGT GLCSYYMNRG 180 ICKFGSNCKF HHPNSGSGHE KWDGSLQTNQ ISSGVNIYSV LDHGELNEQP VPSIDDFQRG 240 NSCFQPAEQT RYTRDQLLKL RETVDVPKDI MKLIQDINVE LRAEDESRAP NETNYVPTLS 300 YKRFQETDSH DWHSRSLQTP VVAEEEKSQD DTREAKEPYA FGWKQKEFNK QDQKSFQSDS 360 KAQAGPTLAL HKAEDPWSIQ RSTVPEKYKV LKTVKGILNL LTPEKFDILK DQLIEAGITR 420 TDILKDVIDL ILEKAVAEPT LCPMYAQFCS YLNENLTAFP PKDTHCEQIT FKQALSDKCQ 480 QAFEIARNVR ADIYKLTGRE QEMERRDKER LVKHQILGKI RLIRDLLKQK MVPDKIVHHI 540 AQAVTDCENF HFEPLENVDL LNIIFDGVLD SVLPGTEANK VVNAIIGIEK CSIASNDAGI 600 IHKDVNRRNE EAKLQKSSND IPNNLIDP

Sequence ? help Back to Top

Protein Sequence Length: 628 aa Download sequence Send to blast

MATTTSSSAC DPAAISPTPS QQHASSTVKT LDDRRPAGTS SSAGETEPKA AVEPQEYPRR  60
PGVPDCSYYV EFGSCKFGMG CLYNHPAKHA GGCDKLEHPQ RPGEHDCLHY LRFGRCKYGM  120
NCRFNHPPDR LPQQQVYFPW KACHCHHSEG KSEAEHVKLN FLGLPLRPGT GLCSYYMNRG  180
ICKFGSNCKF HHPNSGSGHE KWDGSLQTNQ ISSGVNIYSV LDHGELNEQP VPSIDDFQRG  240
NSCFQPAEQT RYTRDQLLKL RETVDVPKDI MKLIQDINVE LRAEDESRAP NETNYVPTLS  300
YKRFQETDSH DWHSRSLQTP VVAEEEKSQD DTREAKEPYA FGWKQKEFNK QDQKSFQSDS  360
KAQAGPTLAL HKAEDPWSIQ RSTVPEKYKV LKTVKGILNL LTPEKFDILK DQLIEAGITR  420
TDILKDVIDL ILEKAVAEPT LCPMYAQFCS YLNENLTAFP PKDTHCEQIT FKQALSDKCQ  480
QAFEIARNVR ADIYKLTGRE QEMERRDKER LVKHQILGKI RLIRDLLKQK MVPDKIVHHI  540
AQAVTDCENF HFEPLENVDL LNIIFDGVLD SVLPGTEANK VVNAIIGIEK CSIASNDAGI  600
IHKDVNRRNE EAKLQKSSND IPNNLIDP

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
4iul_A	6e-15	390	546	22	182	Eukaryotic translation initiation factor 4 gamma 2
4iul_B	6e-15	390	546	22	182	Eukaryotic translation initiation factor 4 gamma 2
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.49333	0.0	leaf

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	37989076	0.0

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK119453	0.0	AK119453.1 Oryza sativa Japonica Group cDNA clone:001-133-D12, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015641846.1	0.0	zinc finger CCCH domain-containing protein 42 isoform X1
Swissprot	Q5Z5Q3	0.0	C3H43_ORYSJ; Zinc finger CCCH domain-containing protein 43
TrEMBL	A2YDI5	0.0	A2YDI5_ORYSI; Uncharacterized protein
STRING	ORUFI06G17650.1	0.0	(Oryza rufipogon)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP14330	13	22

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G48440.1	1e-28	C3H family protein

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]